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Author SHA1 Message Date
Michael Kuhn
670a5e8766 atk: Add 2.36.0 (#16646) 2020-05-14 19:48:21 -05:00
Michael Kuhn
232aa9ff2e at-spi2-atk: Add 2.34.2 (#16647) 2020-05-14 19:47:55 -05:00
Amjad Kotobi
0844e56d6d r-hmisc: new version and updated dependency (#16649) 2020-05-14 19:46:02 -05:00
Amjad Kotobi
1eb5a12019 r-survival: new version and updated dependency (#16650) 2020-05-14 19:44:35 -05:00
Greg Becker
445cae5c81 Feature: Allow lmod configuration to set core specs (#16517) 
Packages built with lmod core_compiler are placed in `Core`.

Other packages may belong in `Core`. For example, python may be built with a proprietary compiler for performance, but belong on the `Core` directory.

With this PR, lmod config can include a `core_specs` list. Any package that satisfies a spec in that list is placed in `Core`, regardless of its compiler or dependencies.
 2020-05-14 11:27:37 -07:00
Michael Kuhn
20b3e41831 adios2: Fix build with gcc@10: (#16570) 2020-05-13 19:46:13 -07:00
Nathan
48a35409e0 Spack Package for ns-3 (#16630) 
* Adding ns3 spack

* Format and cleanup of ns3 spack package

* Removing comments and fixing boost variant

* Fixing formating
 2020-05-13 21:16:17 -05:00
Adam J. Stewart
bc948c4418 py-horovod: add new version (#16635) 2020-05-13 17:52:27 -05:00
Nathan
c50b586e06 Helics: add python variant (#16625) 
* Adding varient for python interface in HELICS

* Append python interface to pythonpath

* cleaning up blank lines

* Update var/spack/repos/builtin/packages/helics/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-05-13 17:25:07 -05:00
Greg Becker
7411fe2d43 cmake build system: filter system paths from rpaths (#16612) 2020-05-13 14:31:33 -07:00
Ben Bergen
37e307e8cd Added alias and bash completion for spacktivate (#16472) 2020-05-13 12:02:38 -06:00
Nick Booher
f294c264a1 revbayes: Update checksum (#16628) 2020-05-13 12:54:21 -05:00
Toyohisa Kameyama
66b896d286 conda4aarch64:New Package. (#16617) 2020-05-13 12:49:42 -05:00
Michael Kuhn
a9ee4da670 ncl: Fix build with gcc@10: (#16624) 2020-05-13 12:45:12 -05:00
Amjad Kotobi
9b8082ecf3 r-exactextractr: new package (#16626) 2020-05-13 12:42:16 -05:00
Nichols A. Romero
fa57f1da29 QE Update May 2020 (#16627) 
* Clarify comments about QMCPACK-to-QE converter.

* Allow hdf5=serial with QE 6.4.1 + qmcpack, but apply filter_file.

* Ammend comments about the use of the filter_file.
 2020-05-13 12:41:16 -05:00
lpritch-lanl
043d507540 py-pint: added versions up to v0.11 (#16537) 
Co-authored-by: Lori Pritchett-Sheats <lpritch@pn2002926.lanl.gov>
 2020-05-13 16:47:01 +02:00
Michael Kuhn
308f016f31 parallel-netcdf: fix build with gcc@10: (#16620) 2020-05-13 16:44:50 +02:00
Amjad Kotobi
f6fbf8b8d3 r-xml2: new version & updated dependencies (#16604) 
* r-xml2: new version & updated dependencies

* r-xml2: updated dependencies
 2020-05-13 09:22:53 -05:00
Tomoki, Karatsu
a740c361cd ppopen-appl-fdm: added support to Fujitsu compilers. (#16616) 2020-05-13 15:10:07 +02:00
Toyohisa Kameyama
4777284f08 charmpp: support for aarch64. (#16619) 2020-05-13 15:06:25 +02:00
Michael Kuhn
b4052eb3b8 tcsh: fix build with gcc@10: (#16621) 2020-05-13 14:57:12 +02:00
Michael Kuhn
aaf3388cfe esmf: fix build with gcc@10: (#16622) 2020-05-13 14:53:49 +02:00
Peter Scheibel
701fc1fdb1 Update docs on "spack external find" (#16482) 
This improves the documentation for `spack external find` in several ways:

* Provide a code example of implementing `determine_spec_details` for a package
* Explain how to define executables to look for (and also e.g. that they are treated as regular expressions and so can pull in unexpected files).
* Add the "why" for a couple of constraints (i.e. explain that this logic only works for build/run deps because it examines `PATH` for executables)
* Spread the docs between build customization and packaging sections
* Add cross-references
* Add a label so that `spack external find` is linked from the command reference.
 2020-05-12 17:08:08 -07:00
Chris White
fdf38ec991 Fix axom install target (#16613) 2020-05-12 16:57:25 -07:00
Pariksheet Nanda
f43b7824ca py-plotly: unfix dependency versions (fixes #16544) (#16546) 
* py-plotly: unfix dependency versions (fixes #16544)

* py-plotly: add missing dependencies for #16546

* py-plotly: match setup.py instead of requirements.txt for #16546
 2020-05-12 17:06:18 -05:00
Justin S
0f2a581276 velvetoptimiser: new package at 2.2.6 (#16611) 2020-05-12 17:05:19 -05:00
Amjad Kotobi
ab92407940 r-testthat : dependencies and version updated (#16576) 
* r-testthat : dependencies and version updated

* Adding version conditions for dependencies

* r-testthat: Fix dependecies condition
 2020-05-12 17:05:01 -05:00
Adam J. Stewart
b4e587bd0b py-scikit-learn: add new version (#16607) 2020-05-12 16:43:56 -05:00
Justin S
1d76067d7a zstd: add 1.4.4 (#16608) 2020-05-12 16:43:43 -05:00
Massimiliano Culpo
11fa61665f travis: use bionic as default for Linux (#16521) 
Modifications:

- [x] Travis now uses `bionic` as a default (`xenial` used for Python 3.5, `trusty` for Python 2.6)
- [x] Shell unit tests have been factored into their own run
- [x] `kcov` is built only for tests that upload coverage results

Overall with this we shave 3-4 mins. on each run and add an additional run of about 3 min. For some reason `kcov` 38 fails forwarding output when used with Python unit tests, so I used v34 for that and v38 (latest) for shell testing. Previously we were using v25.
 2020-05-12 13:56:01 -07:00
Adam J. Stewart
6b41fb88a9 py-threadpoolctl: add new package (#16606) 2020-05-12 14:33:10 -05:00
Nick Booher
9bdf4564db revbayes: update for 1.1.0 (#16603) 
* revbayes: update for 1.1.0

* revbayes: Fix flake8
 2020-05-12 14:26:44 -05:00
Greg Becker
0307111dd8 bugfix: reorder variants in Spec strings (#16462) 
* change print order for variants to avoid zsh parsing bugs

* change tests for new variant parse order
 2020-05-12 10:23:42 -07:00
Amjad Kotobi
154c0f5771 new version r-rcurl (#16550) 
* new version r-rcurl

* RCurl dependency R version updated

* Adding version conditions
 2020-05-12 11:42:58 -05:00
Amjad Kotobi
78d8dd0815 new version r-cli (#16553) 
* new version r-cli

* r-cli : dependencies updated

* Adding version conditions for dependencies
 2020-05-12 11:42:20 -05:00
Amjad Kotobi
bfa707dfc4 new version r-ellipsis (#16556) 
* new version r-ellipsis

* r-ellipsis : R dependency updated

* Adding version conditions for dependencies
 2020-05-12 11:41:41 -05:00
Amjad Kotobi
d4c8c8b80d r-rematch2 : new package (#16563) 
* r-rematch2 : new package

* Updating URL
 2020-05-12 11:41:20 -05:00
Amjad Kotobi
b99a5369ce r-roxygen : dependencies and version updated (#16565) 
* r-roxygen : dependencies and version updated

* Dependencies updated for condition
 2020-05-12 11:40:55 -05:00
Amjad Kotobi
7528e1eb45 r-purrr : dependencies and version update (#16566) 
* r-purrr : dependencies and version update

* Dependencies updated for condition
 2020-05-12 11:39:39 -05:00
Amjad Kotobi
173823e77d r-rversions : new package (#16572) 
* r-rversions : new package

* URL updated r-rversions
 2020-05-12 11:39:08 -05:00
Amjad Kotobi
14b80ecaf2 r-withr : dependencies and version updated (#16577) 
* r-withr : dependencies and version updated

* Adding version conditions for dependencies
 2020-05-12 11:36:25 -05:00
Amjad Kotobi
7c327ed447 r-knitr : dependencies and version updated (#16579) 
* r-knitr : dependencies and version updated

* Adding version conditions for dependencies
 2020-05-12 11:35:41 -05:00
Tomoki, Karatsu
278f8eb7fe modylas: Add flag to use preprocessor when building with Fujitsu compiler. (#16598) 2020-05-12 11:34:28 -05:00
Jose E. Roman
8b06bd7198 New patch release SLEPc 3.13.2 (#16601) 2020-05-12 11:33:46 -05:00
Andrew W Elble
e36aa96392 py-horovod: link dependency for py-torch (#16600) 
fix for same reasons as #16495.
 2020-05-12 11:24:30 -05:00
Toyohisa Kameyama
7813e41464 caffe: fixed build error (#16520) 
* opencv 3.2 requires cmake 3.11 or older.
caffe dependency is changed.

* revert opencv variant to caffe.
backport to opencv errors.
 2020-05-12 09:39:19 -05:00
Sergey Kosukhin
d1a5dc792e py-dask: new version (#16531) 
* py-dask: new version

* py-dask: update the constraints.

* py-dask: add a list of maintainers.
 2020-05-12 09:35:11 -05:00
Michael Kuhn
15112f9dba gcc: fix several issues (#16599) 
- GCC has moved to Git
- The develop/master version requires flex
- Add myself as a maintainer
- Set the library path in the zstd patch
 2020-05-12 13:56:58 +02:00
Todd Gamblin
a44f487a1d z3: update python dependency (#16597) 
-[x] `z3` needs a dependency on `py-setuptools`
-[x] `z3` has a run dependency on `python`, so we might as well make
     building with the python bindings default
 2020-05-12 11:15:42 +02:00